Diffusion lammps (master) History

lammps/doc
master3c88fa1436ff159f785a100…

Sep 14 2016

Fix bug introduced in latest changes
3c88fa1436ff
·Richard Berger on Sep 14 2016, 02:18.
Fix error in Manual.txt
b7ddc860c7f5
·Richard Berger on Sep 14 2016, 02:00.
Raise exception and output error if ulb,ule and olb,ole are unbalanced
c61d5a1a2959
·Richard Berger on Sep 14 2016, 01:53.
Update unit tests to reflect new behavior
1dc19eceb2d7
·Richard Berger on Sep 14 2016, 01:03.
Add indentation to multi-paragraph entries
ae6b540d3cca
·Richard Berger on Sep 14 2016, 01:03.

Sep 13 2016

Remove references to former empty file
300d1ef52e23
·Richard Berger on Sep 13 2016, 20:17.
remove empty file
633840c87672
·Richard Berger on Sep 13 2016, 19:46.
Created more complete TOC and indices
c44228b0ccec
·Richard Berger on Sep 13 2016, 19:40.
Filter out more header numbers
90f6395ddc58
·Richard Berger on Sep 13 2016, 19:31.
Escape pipe characters
546582ea0251
·Richard Berger on Sep 13 2016, 05:18.
making a few more in-page links unique. some more small corrections and clenups
b76a42d3e0a6
·Axel Kohlmeyer on Sep 13 2016, 01:57.

Sep 12 2016

more doc formatting issues triggering errors/warnings in sphinx
54d5a14fe3d6
·Axel Kohlmeyer on Sep 12 2016, 20:48.
some more smaller doc file cleanups. almost there...
f6efde373083
·Axel Kohlmeyer on Sep 12 2016, 19:37.
more typesetting corrections in docs indicated by sphinx warnings
4c399fc55339
·Axel Kohlmeyer on Sep 12 2016, 18:23.
correct various formatting issues flagged by sphinx
328b7abeaa49
·Axel Kohlmeyer on Sep 12 2016, 05:24.
correct references to Howto subsections
c3de3c142f95
·Axel Kohlmeyer on Sep 12 2016, 05:01.
avoid bad typesetting of include images
80f94c7d0253
·Axel Kohlmeyer on Sep 12 2016, 02:09.
updates in "Getting Started" for running on Windows.
e11bfcf11706
·Axel Kohlmeyer on Sep 12 2016, 02:09.
update html files with recent changes
be1cf40f2be5
·Axel Kohlmeyer on Sep 12 2016, 01:34.
correct and improve typesetting for various sub-sub-subsections in "Getting…
555a02786ddd
·Axel Kohlmeyer on Sep 12 2016, 01:28.
update description of Windows support in "Getting started" Section
cf6f504977cb
·Axel Kohlmeyer on Sep 12 2016, 01:07.
correct and improve links to PyMol and MATLAB
b698f389bc6f
·Axel Kohlmeyer on Sep 12 2016, 00:46.

Sep 11 2016

regenerate html pages with the updated content from the corrections
e96a8a46772c
·Axel Kohlmeyer on Sep 11 2016, 03:15.
correct section link descriptions
f8d5488409e3
·Axel Kohlmeyer on Sep 11 2016, 03:03.
Give credit to Richard for being the lammps.org and senior jenkins wrangler
4d298ccf2fff
·Axel Kohlmeyer on Sep 11 2016, 02:18.
place ellipses in square brackets to avoid sphinx choking on them
cb3044091ca7
·Axel Kohlmeyer on Sep 11 2016, 02:05.

Sep 8 2016

Merge pull request #24 from rbberger/info_command_styles
b866e0663b9f
·sjplimp / GitHub on Sep 8 2016, 22:16.
Merge pull request #23 from akohlmey/doc-corrections-and-updates
5d0da95a0b6d
·sjplimp / GitHub on Sep 8 2016, 22:15.
Update generated HTML docs of info command
1f901c9b2daa
·Richard Berger on Sep 8 2016, 15:53.
Update docs of info command
79b8f6320d62
·Richard Berger on Sep 8 2016, 15:53.

Sep 7 2016

correct internal links for Modify LAMMPS section
0fe7d1d3612c
·Axel Kohlmeyer on Sep 7 2016, 16:13.
correct reference in modify section
346ff4249833
·Axel Kohlmeyer on Sep 7 2016, 16:10.
regenerate html pages with new txt2rst tool
5feedbd8291d
·Axel Kohlmeyer on Sep 7 2016, 16:09.
replace backquote with regular quote and `` + '' with double quote.
44ce6fac4b91
·Axel Kohlmeyer on Sep 7 2016, 14:29.
Update discussion on parallel python packages. There seem to be only two left.
70d6718aa312
·Axel Kohlmeyer on Sep 7 2016, 13:42.
Make formatting and links more consistent and unique
348b677148ce
·Axel Kohlmeyer on Sep 7 2016, 13:41.
Enforce l,ule or l,ole command order for RST
4c783ea3b726
·Richard Berger / Axel Kohlmeyer on Sep 7 2016, 08:16.
Refactored code and escape RST special character '_'
9e8256aeb0b7
·Richard Berger / Axel Kohlmeyer on Sep 7 2016, 08:16.
Escape RST special character '^' and take care of special math cases
925f1bfb6fc9
·Richard Berger / Axel Kohlmeyer on Sep 7 2016, 08:16.
Escape RST special character '*' in final output
3f312244a01d
·Richard Berger / Axel Kohlmeyer on Sep 7 2016, 08:16.
replace :l,ule and :l,ole with :l :ule or :l :ole
55022d126306
·Axel Kohlmeyer on Sep 7 2016, 08:11.
avoid Inline substitution_reference start-string without end-string
0d491d483c23
·Axel Kohlmeyer on Sep 7 2016, 08:10.
correct error message text, sync with source
a31c5073706c
·Axel Kohlmeyer on Sep 7 2016, 04:15.
update colvars library to version 2016-08-19
16607a0132d5
·Axel Kohlmeyer on Sep 7 2016, 03:27.
update colvars to version 2016-08-10
ec2a6b9f0de3
·Axel Kohlmeyer on Sep 7 2016, 03:27.
update manual introduction to represent current status. correct some markup to…
fc2d87830538
·Axel Kohlmeyer on Sep 7 2016, 03:20.
Merge branch 'integration' into doc-corrections-and-updates
1c17b9850056
·Axel Kohlmeyer on Sep 7 2016, 02:19.
Merge remote-tracking branch 'lammps-rw/clean-up-docs-for-sphinx' into clean-up…
ace5dc3c7c9a
·Axel Kohlmeyer on Sep 7 2016, 01:54.
sync with 7Sep16 patch
0252347d43c5
·Steve Plimpton on Sep 7 2016, 01:00.
Merge pull request #20 from akohlmey/lammps-contribute
c9455c90dee3
·sjplimp / GitHub on Sep 7 2016, 00:55.

Sep 6 2016

one more small correction to document recent fix ave/time changes
42db93e1980b
·Axel Kohlmeyer on Sep 6 2016, 22:10.
fix typos
906bd2454318
·Axel Kohlmeyer on Sep 6 2016, 22:03.
update the discussion on how to submit modifications
4f88c7540152
·Axel Kohlmeyer on Sep 6 2016, 22:02.
generate updated html files for corrected .txt files
1a7b04e8a613
·Axel Kohlmeyer on Sep 6 2016, 19:40.
correct link targets
fbc955e5492c
·Axel Kohlmeyer on Sep 6 2016, 19:40.
add pppm/kk and fix reax/c issues
3bb3c1a45c81
·Steve Plimpton on Sep 6 2016, 18:46.

Sep 1 2016

mention stable releases
431d1a6dae03
·Axel Kohlmeyer on Sep 1 2016, 08:37.
synchronize LAMMPS developer list with webpage and move ray to "past"
ab84acc2cdfc
·Axel Kohlmeyer on Sep 1 2016, 08:26.
replace :ule,l and :ole,l with :l<br>:ule and :l<br>:ole
fc093a0aab17
·Axel Kohlmeyer on Sep 1 2016, 08:07.
add new commands to lammps.book
5e6dff36e4e1
·Axel Kohlmeyer on Sep 1 2016, 08:01.
generate updated html files for corrected .txt files
7de57ffd94b3
·Axel Kohlmeyer on Sep 1 2016, 06:02.
correct link targets
ff75cf51bb5f
·Axel Kohlmeyer on Sep 1 2016, 06:01.
Merge pull request #17 from akohlmey/small-doc-fixes
fb2c18ee8872
·sjplimp / GitHub on Sep 1 2016, 03:57.
removing searchindex.js
de0036fafd07
·Steve Plimpton on Sep 1 2016, 03:52.
include autogenerated html code
c3c9788dc72c
·Axel Kohlmeyer on Sep 1 2016, 03:49.
Merge branch 'integration' into small-doc-fixes
2abd5ad28ae2
·Axel Kohlmeyer on Sep 1 2016, 03:42.
small changes to doc page
de21cb2cd596
·Steve Plimpton on Sep 1 2016, 00:16.
Merge branch 'core/cpp_exceptions' of https://github.com/rbberger/lammps into…
639ab0fd3e37
·Steve Plimpton on Sep 1 2016, 00:11.
bad file?
6c65af710c01
·Steve Plimpton on Sep 1 2016, 00:10.

Aug 31 2016

corrections for various compute something/chunk examples
29e480ad666c
·Axel Kohlmeyer on Aug 31 2016, 23:31.
sync with SVN
7c01ef57eeb0
·Steve Plimpton on Aug 31 2016, 23:17.
Merge pull request #6 from akohlmey/manifold-doc-update
f89448d73c91
·sjplimp / GitHub on Aug 31 2016, 22:53.
sync w/ SVN
ad879d97dbfe
·Steve Plimpton on Aug 31 2016, 22:29.
Merge branch 'small' into integration
4051aedf2c78
·Steve Plimpton on Aug 31 2016, 21:58.
sync with SVN
ec8b9e21dbb4
·Steve Plimpton on Aug 31 2016, 21:28.
Remove no longer needed generated files in doc
1986eda4d5f1
·Richard Berger on Aug 31 2016, 06:36.
Use Google Custom Search API for searching in docs
e71fafdd256c
·Richard Berger on Aug 31 2016, 06:28.

Aug 28 2016

updated doc build readme for current Fedora and RHEL/CentOS
56d0ab947412
·Axel Kohlmeyer on Aug 28 2016, 20:20.
Merge branch 'integration' into small-bugfixes
f8d6b979ec1a
·Axel Kohlmeyer on Aug 28 2016, 20:16.
Added documentation about -DLAMMPS_EXCEPTIONS flag
f5a50c3cd1c8
·Richard Berger on Aug 28 2016, 04:13.
sync with SVN
3a1397dc7c36
·Steve Plimpton on Aug 28 2016, 01:11.
Merge pull request #9 from rbberger/remove_sha1sum_dependency
0c2e643062ac
·sjplimp / GitHub on Aug 28 2016, 01:02.
new fix flow/gauss command
c80dad002883
·Steve Plimpton on Aug 28 2016, 00:25.

Aug 26 2016

improved .gitignore files to show only changes in relevant folders and files
9be235d87258
·Axel Kohlmeyer on Aug 26 2016, 20:34.
removal of doc/html/_sources and minor sync with SVN
2beecd1e7351
·Steve Plimpton on Aug 26 2016, 19:34.
Add MacOS X instructions to doc generation README
95aabdf51a96
·Richard Berger on Aug 26 2016, 16:08.
Remove sha1sum dependency for doc generation
ea368919f3b5
·Richard Berger on Aug 26 2016, 06:01.

Aug 25 2016

Small update for USER-MANIFOLD docs.
b8e7f5301702
·Stefan Paquay / Axel Kohlmeyer on Aug 25 2016, 05:36.
fix typo in compute omega/chunk usage example
ff541e9a8499
·Axel Kohlmeyer on Aug 25 2016, 05:04.

Aug 24 2016

doc files
e27196e91c96
·Steve Plimpton on Aug 24 2016, 00:28.

Aug 23 2016

Merge branch 'integration' into small-bugfixes
270b07b03537
·Steve Plimpton on Aug 23 2016, 23:35.
fixed integer division problem in python code snippet
55fe1f6b29cc
·athomps on Aug 23 2016, 00:35.

Aug 22 2016

thread timing summare needs to be marked as preformatted
c88e9b46cf97
·Axel Kohlmeyer on Aug 22 2016, 20:35.

Aug 21 2016

git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15484 f3b2605a-c512-4ea7…
2fff78a78eb2
·sjplimp on Aug 21 2016, 00:43.
git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15482 f3b2605a-c512-4ea7…
ccf8cf20b378
·sjplimp on Aug 21 2016, 00:42.

Aug 13 2016

git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15479 f3b2605a-c512-4ea7…
b1829c107cd0
·sjplimp on Aug 13 2016, 17:03.
git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15475 f3b2605a-c512-4ea7…
832f6a9f1125
·sjplimp on Aug 13 2016, 16:52.

Aug 12 2016

git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15471 f3b2605a-c512-4ea7…
c03252f08da0
·sjplimp on Aug 12 2016, 16:34.
git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15469 f3b2605a-c512-4ea7…
112c98159b1c
·sjplimp on Aug 12 2016, 15:49.

Aug 10 2016

git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15467 f3b2605a-c512-4ea7…
b3364ae94333
·sjplimp on Aug 10 2016, 16:46.

lammps/docmaster3c88fa1436ff159f785a100…

Sep 14 2016

Sep 13 2016

Sep 12 2016

Sep 11 2016

Sep 8 2016

Sep 7 2016

Sep 6 2016

Sep 1 2016

Aug 31 2016

Aug 28 2016

Aug 26 2016

Aug 25 2016

Aug 24 2016

Aug 23 2016

Aug 22 2016

Aug 21 2016

Aug 13 2016

Aug 12 2016

Aug 10 2016

lammps/doc
master3c88fa1436ff159f785a100…